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<title>GBSK 2005 evaluation</title>
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<h3>Test cases from Gremme et al. 2005</h3>
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<table border=1>
  <tr>
    <td></td>
    <td>GeneSeqer</td>
    <td>GenomeThreader (w/out intron cutout)</td>
    <td>GenomeThreader (with intron cutout)</td>
  </tr>
  <tr>
    <td>total output</td>
    <td><a href="./gsq-OSchr10.out9">gsq-OSchr10.out9</a></td>
    <td><a href="./gth-OSchr10.out9">gth-OSchr10.out9</a></td>
    <td><a href="./gth-OSchr10-IC.out9">gth-OSchr10-IC.out9</a></td>
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  <tr>
    <td>parameter settings</td>
    <td><a href="./parameters.gsq">parameters.gsq</a></td>
    <td><a href="./parameters.gth">parameters.gth</a></td>
    <td><a href="./parameters.IC.gth">parameters.IC.gth</a></td>
  </tr>
  <tr>
    <td rowspan=2>alignments the same</td>
    <td><a href="./struct_same.gsq">struct_same.gsq</a></td>
    <td><a href="./struct_same.gth">struct_same.gth</a></td>
    <td>*</td>
  </tr>
  <tr>
    <td><a href="./struct_same.IC.gsq">struct_same.IC.gsq</a></td>
    <td>*</td>
    <td><a href="./struct_same.IC.gth">struct_same.IC.gth</a></td>
  </tr>
  <tr>
    <td>alignments similar, but on opposite strands</td>
    <td><a href="./strand_diff.gsq">strand_diff.gsq</a></td>
    <td><a href="./strand_diff.gth">strand_diff.gth</a></td>
    <td>*</td>
  </tr>
  <tr>
    <td rowspan=2>gene structures differ, but at same locus</td>
    <td><a href="./struct_diff.gsq">struct_diff.gsq</a></td>
    <td><a href="./struct_diff.gth">struct_diff.gth</a></td>
    <td>*</td>
  </tr>
  <tr>
    <td><a href="./struct_diff.gsq">struct_diff.IC.gsq</a></td>
    <td>*</td>
    <td><a href="./struct_diff.gth">struct_diff.IC.gth</a></td>
  </tr>
  <tr>
    <td>cDNA maps to different locus</td>
    <td><a href="./locus_diff.gsq">locus_diff.gsq</a></td>
    <td><a href="./locus_diff.gth">locus_diff.gth</a></td>
    <td>*</td>
  </tr>
</table>

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